Special Instructions

Method Name

Whole Genome Sequencing

Reporting Name

Bacterial Typing, Whole Genome Seq

Specimen Type

Varies

Advisory Information

Currently, Staphylococcus aureus, Acinetobacter
baumannii, Klebsiella pneumoniae, Legionella pneumophila and
Clostridioides (Clostridium)
difficile are being tested by this method. Additional
species will be added in the near future.

Additional Testing Requirements

Shipping Instructions

1. See Infectious Specimen Shipping Guidelines in Special
Instructions for shipping information.

2. Place isolates in a large infectious container (T146) and
label as an etiologic agent/infectious substance.

3. Place all isolates (all patients and/or sites to be compared)
submitted for whole genome sequencing (WGS) together in 1 large
bag, and send in the same shipping container. This is necessary for
comparison of isolates by this method.

Necessary Information

1. Organism identification and specimen source are
required for processing.

2. Bacterial organism must be in pure culture, actively growing.
Do not submit mixed
cultures.

Specimen Stability Information

Specimen Type

Temperature

Time

Varies

Ambient (preferred)

Refrigerated

Clinical Information

Bacterial strain typing may be useful for determining strain
relatedness in the setting of possible nosocomial transmission or
community outbreaks. Serial isolates obtained from the same patient
may be typed to assess similarity. Typing may allow discrimination
of 2 or more isolates of the same species, which can inform
recognition of an outbreak, nosocomial transmission, or identify a
potential source of infection in an individual patient.

Pulse-field gel electrophoresis (PFGE) has traditionally been
used for strain typing, but does not always discriminate between
different bacterial strains (eg, 2 genetically dissimilar strains
may have indistinguishable PFGE patterns). Whole genome sequencing
offers a higher level of resolution of genetic relatedness of
strains than does PFGE.

Reference Values

Reported as isolates are "related", "possibly related", or
"unrelated" by whole genome sequencing.

Day(s) and Time(s) Performed

Varies; Batch tested 1 time per week

Analytic Time

10 days

Performing Laboratory

Mayo Medical Laboratories in Rochester

Test Classification

This test was developed and its performance characteristics
determined by Mayo Clinic in a manner consistent with CLIA
requirements. This test has not been cleared or approved by the
U.S. Food and Drug Administration.

CPT Code Information

0010U-Bacterial Typing, Whole Genome Seq

87900-Bioinformatics Reanalysis (if appropriate)

87077-Ident by MALDI-TOF mass spec (if appropriate)

87153-Aerobe ident by sequencing (if appropriate)

87077-Additional identification procedure (if appropriate)

LOINC Code Information

Test ID

Test Order Name

Order LOINC Value

BTWGS

Bacterial Typing, Whole Genome
Seq

In Process

Result ID

Test Result Name

Result LOINC Value

BTWGS

Bacterial Typing, Whole Genome
Seq

In Process

NY State Approved

N/A

Reflex Tests

Test ID

Reporting Name

Available Separately

Always Performed

BIORE

Bioinformatics Reanalysis

No, (Bill Only)

No

RMALD

Ident by MALDI-TOF mass spec

No, (Bill Only)

No

ISAE

Aerobe Ident by Sequencing

No, (Bill Only)

No

REFID

Additional Identification
Procedure

No, (Bill Only)

No

Testing Algorithm

Organism identification is required. All bacteria submitted will
be tested. Organism identifications that are incorrect or
incomplete may result in no results at final analysis. Laboratory
may perform MALDI-TOF MS or other testing as listed in Reflex Tests
to confirm identification, report this finding, and charge
accordingly.

When reanalysis of previously submitted isolates for comparison
to new isolates is requested, BIORE / Bioinformatics Reanalysis
(Bill Only) will be added by Mayo Medical Laboratories. Original
patient submission information (names and order numbers) must be
provided.